RAREFY COMMAND
From Genome Analysis Wiki
The printable version is no longer supported and may have rendering errors. Please update your browser bookmarks and please use the default browser print function instead.
Options: Input Files : --ped [], --dat [] Methods : --MCMC, --traitIncreasing, --traitDecreasing Trait : --inverseNormal, --useCovariates, --traitName [] Parameters : --maf [1.0e-03], --effect [1.00] MCMC : --seed, --chains [3], --iterations [50000000] Other : --famList [], --famID [], --cpus [5], --prefix []
Input Files
--ped
followed by the file name of yourMERLIN format PED file.
--dat
followed by the file name of your MERLIN format DAT file.
Methods
--MCMC
[ON|OFF]: default is OFF, but will be automatically turned on for families larger than 25 individuals.
--traitIncreasing
[ON|OFF]: default is OFF; can be used together with --traitDecreasing options or used alone.
--traitDecreasing
[ON|OFF]: default is OFF; can be used together with --traitIncreasing options or used alone.